Literature DB >> 36098530

Draft Genome Sequence of Pediococcus pentosaceus Strain PP16CC, Isolated from Oyster Crassostrea corteziensis.

Julio A Hernandez-Gonzalez1, Ricardo Vazquez-Juarez2, Jose Manuel Vazquez-Guillen3, Carlos Rangel-Davalos1, Cristina Rodriguez-Padilla3, Maurilia Rojas1.   

Abstract

Pediococcus pentosaceus strain PP16CC comes from the intestine of Crassostrea corteziensis. A 1.82-Mbp draft genome of this strain was assembled using A5-miseq from illumina reads, resulting in 4 contigs and 1,856 predicted protein coding genes. Additionally, 23 proteins belonging to various glycosyl hydrolase families and 6 prophage regions were identified.

Entities:  

Year:  2022        PMID： 36098530      PMCID： PMC9584201          DOI： 10.1128/mra.00395-22

Source DB:  PubMed          Journal:  Microbiol Resour Announc        ISSN： 2576-098X


  12 in total

1.  Scaffolding pre-assembled contigs using SSPACE.

Authors:  Marten Boetzer; Christiaan V Henkel; Hans J Jansen; Derek Butler; Walter Pirovano
Journal:  Bioinformatics       Date:  2010-12-12       Impact factor: 6.937

Review 2.  Infectious diseases of marine molluscs and host responses as revealed by genomic tools.

Authors:  Ximing Guo; Susan E Ford
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2016-03-05       Impact factor: 6.237

3.  A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae.

Authors:  Jinshui Zheng; Stijn Wittouck; Elisa Salvetti; Charles M A P Franz; Hugh M B Harris; Paola Mattarelli; Paul W O'Toole; Bruno Pot; Peter Vandamme; Jens Walter; Koichi Watanabe; Sander Wuyts; Giovanna E Felis; Michael G Gänzle; Sarah Lebeer
Journal:  Int J Syst Evol Microbiol       Date:  2020-04-15       Impact factor: 2.747

4.  dbCAN: a web resource for automated carbohydrate-active enzyme annotation.

Authors:  Yanbin Yin; Xizeng Mao; Jincai Yang; Xin Chen; Fenglou Mao; Ying Xu
Journal:  Nucleic Acids Res       Date:  2012-05-29       Impact factor: 16.971

5.  The carbohydrate-active enzyme database: functions and literature.

Authors:  Elodie Drula; Marie-Line Garron; Suzan Dogan; Vincent Lombard; Bernard Henrissat; Nicolas Terrapon
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

6.  Reordering contigs of draft genomes using the Mauve aligner.

Authors:  Anna I Rissman; Bob Mau; Bryan S Biehl; Aaron E Darling; Jeremy D Glasner; Nicole T Perna
Journal:  Bioinformatics       Date:  2009-06-10       Impact factor: 6.937

7.  PHASTER: a better, faster version of the PHAST phage search tool.

Authors:  David Arndt; Jason R Grant; Ana Marcu; Tanvir Sajed; Allison Pon; Yongjie Liang; David S Wishart
Journal:  Nucleic Acids Res       Date:  2016-05-03       Impact factor: 16.971

8.  NCBI prokaryotic genome annotation pipeline.

Authors:  Tatiana Tatusova; Michael DiCuccio; Azat Badretdin; Vyacheslav Chetvernin; Eric P Nawrocki; Leonid Zaslavsky; Alexandre Lomsadze; Kim D Pruitt; Mark Borodovsky; James Ostell
Journal:  Nucleic Acids Res       Date:  2016-06-24       Impact factor: 16.971

9.  The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level.

Authors:  Luis M Rodriguez-R; Santosh Gunturu; William T Harvey; Ramon Rosselló-Mora; James M Tiedje; James R Cole; Konstantinos T Konstantinidis
Journal:  Nucleic Acids Res       Date:  2018-07-02       Impact factor: 16.971

10.  Comparative Genomics of Pediococcus pentosaceus Isolated From Different Niches Reveals Genetic Diversity in Carbohydrate Metabolism and Immune System.

Authors:  Jie Jiang; Bo Yang; R Paul Ross; Catherine Stanton; Jianxin Zhao; Hao Zhang; Wei Chen
Journal:  Front Microbiol       Date:  2020-02-26       Impact factor: 5.640
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